Computational Genomics: Applied Comparative Genomics
...red to conduct independent genomic analyses. We will study the leading computational and quantitative approaches for comparing and analyzing genomes starting from raw sequencing...2377 days ago
dnaPipeTE: de-novo assembly & annotation Pipeline for Transposable Elements
...otate and quantify Transposable Elements in small samples of NGS datasets. It is very useful to quantify the proportion of TEs in newly sequenced genomes since it does not require gen...2374 days ago
MetaSim A Sequencing Simulator for Genomics and Metagenomics.
...enome data sets. Based on a database of given genomes, the program allows the user...a metagenome by specifying the number of genomes present at different levels o...ly produces evolved sequences based on source genomes and a given evolutionary tree...2372 days ago
kraken: A universal genomic coordinate translator for comparative genomics
If you planning on conducting a study involving dozens of large genomes, then you do not have to run all pairwise synteny alignments .. simply try kraken: A universal genomic coordinate translator for comparative genomics2369 days ago
Harvest: a suite of core-genome alignment and visualization tools
Harvest is a suite of core-genome alignment and visualization tools for quickly analyzing thousands of intraspecific microbial genomes, including variant calls, recombination detectio...2368 days ago
2368 days ago
Mugsy: multiple whole genome alignment tool
...e multiple alignment strategy from Seqan::TCoffee. Mugsy accepts draft genomes in the form of multi-FASTA fi...zberg SL. Mugsy: Fast multiple alignment of closely related whole genomes.Bioinformatics 2011 27(3...2368 days ago
Delta: a new Web-based 3D genome visualization and analysis platform
Delta is an integrative visualization and analysis platform to facilitate visually annotating and exploring the 3D physical architecture of genomes. Delta takes Hi-C or...2356 days ago
dipSPAdes: Assembler for Highly Polymorphic Diploid Genomes.
...e the number of sequenced diploid genomes have been steadily increasing...f highly polymorphic (HP) diploid genomes remains challenging. As a res...ortage of tools for assembling HP genomes from the next generation sequ...raph assembler, dipSPAdes, for HP genomes that significantly improves o...2356 days ago
Meraculous: Haplotype-sensitive Assembly of Highly Heterozygous genomes.
...genome assembler for Next Generation Sequencing data geared for large genomes. It is a hybrid k-mer/read-ba...s and multi-threaded parallelization, allowing to assemble human-sized genomes on commodity clusters in unde...2355 days ago